# R script for Peak Model
#  -- generated by MACS
p <- c(0.0394453416945,0.0460090465524,0.0525096388637,0.0594520190019,0.0667099618737,0.0670255246073,0.0653214858461,0.0663943991402,0.0679091002612,0.0682877755415,0.0689189010086,0.0696131390224,0.0685402257283,0.0676566500744,0.0669624120606,0.0668361869671,0.0672148622474,0.0661419489533,0.0674673124342,0.0676566500744,0.0667099618737,0.0660157238599,0.0677197626211,0.0687295633685,0.0681615504481,0.0680353253546,0.0675935375277,0.0685402257283,0.067530424981,0.0678459877145,0.0694238013823,0.0712540652369,0.0702442644895,0.0697393641158,0.0706229397698,0.0702442644895,0.0709385025034,0.0699918143027,0.0681615504481,0.0695500264757,0.0681615504481,0.0653845983928,0.0655108234862,0.0660788364066,0.0654477109395,0.0649428105658,0.0641854600053,0.0641223474586,0.0675935375277,0.0651952607526,0.0660788364066,0.0678459877145,0.0681615504481,0.0676566500744,0.069928701756,0.0708753899566,0.0715065154238,0.0730843290915,0.0704336021297,0.0710647275968,0.0708122774099,0.0725794287178,0.0734630043718,0.0730843290915,0.0704336021297,0.0708122774099,0.0697393641158,0.0711278401435,0.0716958530639,0.0742203549323,0.0743465800258,0.0722007534376,0.0713171777836,0.0719483032507,0.072768766358,0.0721376408909,0.072768766358,0.0715696279705,0.0711278401435,0.0697393641158,0.0699918143027,0.0699918143027,0.0708753899566,0.0718220781573,0.0721376408909,0.0713802903303,0.0726425412646,0.0721376408909,0.0728949914514,0.0726425412646,0.0725794287178,0.0716327405172,0.0715065154238,0.0717589656106,0.0718220781573,0.0723900910777,0.0715065154238,0.0706860523165,0.0709385025034,0.069486913929,0.0697393641158,0.0715065154238,0.0700549268494,0.0678459877145,0.0680984379014,0.0683508880882,0.0687926759152,0.0702442644895,0.0692344637422,0.0710016150501,0.0702442644895,0.0684771131816,0.0710647275968,0.0708753899566,0.0700549268494,0.0708122774099,0.070370489583,0.0696131390224,0.070370489583,0.0697393641158,0.0704967146764,0.072326978531,0.070370489583,0.0716958530639,0.0727056538113,0.0730212165448,0.0748514803995,0.075167043133,0.0738416796521,0.0748514803995,0.074725255306,0.0734630043718,0.0730843290915,0.0741572423856,0.072768766358,0.0715696279705,0.0701811519428,0.0693606888356,0.0696762515691,0.0697393641158,0.0698024766626,0.070370489583,0.0720745283442,0.071885190704,0.0730843290915,0.073210554185,0.0732736667317,0.0708753899566,0.0698024766626,0.0684771131816,0.0702442644895,0.0707491648632,0.0703073770362,0.0695500264757,0.0696762515691,0.0697393641158,0.0710647275968,0.0740941298389,0.0764292940672,0.0777546575482,0.0761137313337,0.0745990302126,0.0741572423856,0.0753563807731,0.0764292940672,0.0779439951883,0.0771235320811,0.0763030689738,0.0754194933199,0.0752301556797,0.0745990302126,0.0749777054929,0.0746621427593,0.0742834674791,0.0719483032507,0.0708753899566,0.0708122774099,0.0727056538113,0.0715696279705,0.0725794287178,0.0720114157974,0.0729581039981,0.0737785671054,0.0742203549323,0.0761137313337,0.0772497571745,0.0773128697212,0.0753563807731,0.0768710818942,0.074725255306,0.0759243936935,0.0766817442541,0.0779439951883,0.0786382332021,0.0770604195343,0.0757350560534,0.0752932682264,0.0759875062403,0.0740310172922,0.075167043133,0.0752301556797,0.0737154545587,0.072326978531,0.0698655892093,0.0705598272231,0.0708122774099,0.0712540652369,0.0710016150501,0.0728949914514,0.0728949914514,0.0720114157974,0.0722638659843,0.0711909526902,0.0715696279705,0.0718220781573,0.0713171777836,0.0712540652369,0.0716958530639,0.0716327405172,0.0713802903303,0.0725163161711,0.0719483032507,0.0730843290915,0.0744728051192,0.075167043133,0.0756719435067,0.0751039305863,0.0744728051192,0.0752932682264,0.0744728051192,0.0726425412646,0.0744096925725,0.0754194933199,0.0742834674791,0.0733367792784,0.0755457184133,0.0754194933199,0.0767448568008,0.0755457184133,0.0769973069876,0.0770604195343,0.0768079693475,0.0761768438804,0.0771235320811,0.077565319908,0.0761137313337,0.0783226704686,0.077565319908,0.0767448568008,0.0776915450015,0.0807209472436,0.081288960164,0.0816676354443,0.0824880985515,0.0817938605377,0.0811627350706,0.0795849214028,0.0797111464962,0.0816045228975,0.0791431335758,0.0787013457488,0.0792062461225,0.0790800210291,0.078007107735,0.0768079693475,0.0768079693475,0.0782595579219,0.0775022073613,0.0770604195343,0.0786382332021,0.0776284324547,0.0767448568008,0.0774390948146,0.0773128697212,0.0792062461225,0.0799635966831,0.0783857830153,0.0802160468699,0.0793324712159,0.0795849214028,0.0794586963094,0.0790169084824,0.0776284324547,0.0766186317074,0.077565319908,0.0768710818942,0.0762399564271,0.0758612811468,0.0776915450015,0.0774390948146,0.0779439951883,0.0772497571745,0.0768710818942,0.0796480339495,0.0783226704686,0.078890683389,0.0792062461225,0.0803422719633,0.0809733974304,0.0822987609114,0.0834978992989,0.0864010764476,0.0903771668904,0.0925861060253,0.096372858828,0.100916962191,0.106723316489,0.109247818357,0.110573181838,0.112529670786,0.114486159734,0.115054172654,0.115937748308,0.115117285201,0.1161901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m <- 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ycorr <- 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altd  <- c(299)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BW43_mre11_k562_vegfa_5xl_16h.2x36mers.hg38-male.unique.MACS-2.1.0_model.pdf',height=6,width=6)
plot(x,p,type='l',col=c('red'),main='Peak Model',xlab='Distance to the middle',ylab='Percentage')
lines(x,m,col=c('blue'))
legend('topleft',c('forward tags','reverse tags'),lty=c(1,1,1),col=c('red','blue'))
plot(xcorr,ycorr,type='l',col=c('black'),main='Cross-Correlation',xlab='Lag between + and - tags',ylab='Correlation')
abline(v=altd,lty=2,col=c('red'))
legend('topleft','alternative lag(s)',lty=2,col='red')
legend('right','alt lag(s) : 299',bty='n')
dev.off()